AllelesLociAntigensHybridizationSequencesPolymorphismGenomicGenesAllele-specificAssayAntigenOligonucleotideLocusGenetic MarkersPolymeraseTaqManPrimersMoleculesAmplificationDetectionVitroNomenclatureDonorAllelicDPB1Whole exomeMethylation profilesDeoxyribonucleic acidCancerClassSusceptibilityTumorEnzymaticCeliacSamplesPaternityMRNAIndividual'sAmpliconsTranscriptionalSpecificDefectiveMethodsProfilesAnalysisProteinsBlood donorsHumanInfectious Diseases
Alleles13
- One of these, pCH6, detects a TaqI polymorphism which is correlated with serological alleles of HLA-B. Both probes are used to show a high level of DNA sequence homology between the 5′ flanking region of HLA-B and HLA-C. (umn.edu)
- In particular, susceptibility to several autoimmune disorders, including type I diabetes mellitus and rheumatoid arthritis, is linked to genes within the MHC and strong population associations are demonstrable between certain HLA class II alleles and these conditions. (ox.ac.uk)
- Sequence-specific oligonucleotides (SSO) can be used to detect individual alleles with a high degree of accuracy by probing dot-blotted DNA, amplified to high copy number by the polymerase chain reaction (PCR). (ox.ac.uk)
- In addition, fine resolution of specificities such as the subtypes of DR4 is possible using a combination of SSO probes and group-specific amplification in which PCR primers designed to amplify only DR4 alleles are employed. (ox.ac.uk)
- Similar to KRAS neoantigen enriched TCRs, these TCRs were associated with specific HLA class I alleles. (bmj.com)
- Using DNA samples from blood donors, two families, and three human cell lines, we detected 13 distinct alleles of the AC/GT microsatellite neighboring human TNF genes. (ox.ac.uk)
- It's important to note that HLA genes are the most polymorphic gene family found in the entire human genome with more than 30,000 different HLA alleles reported since the discovery of the HLA genes in the early 1950s. (cytologicsbio.com)
- Due to the ever increasing number of alleles discovered, the methods and technologies to characterize HLA gene sequences with full accuracy is constantly evolving. (cytologicsbio.com)
- HLA typing methods are generally characterized at low, intermediate and high resolution depending on their power to discriminate between HLA alleles. (cytologicsbio.com)
- Intermediate Resolution - a DNA-based typing result that includes a subset of alleles sharing the digits in the first field of their allele name and that excludes some alleles sharing this field. (cytologicsbio.com)
- [6] High resolution typing can also consist of a set of alleles that specify and encode the same protein sequence for the antigen binding domain of an HLA molecule and that excludes alleles that are not expressed as cell-surface proteins. (cytologicsbio.com)
- Genvinset® HLA CELIAC is an in vitro diagnostic kit designed for the detection of the HLA-DQB1*02, DQB1*03:02 and DQA1*05 alleles in genomic DNA extracted from whole blood, and the consequent determina-tion of the DQ2 and DQ8 antigens, associated with celiac disease predisposition. (bioactiva.com)
- After adjustment for clinical differences between groups (gender, disease duration, HLA-B27 and smoking status) by logistic regression analysis, none of the alleles in the investigated SNPs were found to be associated with radiographic severity of AS. (openrheumatologyjournal.com)
Loci5
- HLA-B27 testing was performed on these samples using a polymerase chain reaction (PCR) to specifically replicate the DNA sequences encoding the HLA loci of interest. (cdc.gov)
- Genetic mapping of HLA susceptibility loci has traditionally relied on the use of phenotypic markers defined by alloantisera, cellular typing reagents and biochemical analysis of histocompatibility antigens. (ox.ac.uk)
- Long Genomic DNA Fragment Capture and SMRT Sequencing Enables Accurate Phasing of Cancer and HLA Loci" is a great backgrounder for scientists interested in using the Roche NimbleGen SeqCap EZ System for target enrichment prior to sequencing on the PacBio® system. (pacb.com)
- The various HLA class II specificities, identifiable by serological or cellular typing reagents, reflect underlying polymorphisms of the constituent alpha and beta chains, encoded at several loci within the HLA-D region. (ox.ac.uk)
- of these, we observed a marked stability of CpG loci associated to the HLA genes.ConclusionsOur data provide insight into the long-term stability of the PBL DNA methylome within an IBD context, facilitating the selection of biologically relevant and robust IBD-associated epigenetic biomarkers with increased potential for independent validation. (ox.ac.uk)
Antigens5
- Techniques used to define human MHC antigens: polymerase chain reaction and oligonucleotide probes. (ox.ac.uk)
- Analysis of this resource - encompassing a diverse collection of cancer types, HLA genotypes, and mutational/viral contexts - revealed a subset of TCRs enriched with allele-specific neo-antigens. (bmj.com)
- In the 1970s, a more powerful test was developed using white blood cell antigens or Human Leukocyte Antigens (HLA), resulting in a test that could exclude about 95 percent of falsely accused fathers. (findlaw.com)
- Thirty-four lymphoblastoid cell lines that had been previously typed for HLA-DP antigens by primed lymphocyte typing (PLT) were tested by Southern blotting and by ELISA. (ox.ac.uk)
- HLA molecules present foreign antigens to elicit T cell responses, so the number of distinct HLA allotypes expressed on the cell surface is directly related to the range of foreign antigens. (cytologicsbio.com)
Hybridization6
- The classic DR specificities (DR1-DRw14) can be identified with certainty by sequential hybridization to a series of 14 SSO probes. (ox.ac.uk)
- conserved genes, whole chromosomes, or whole genomes) used in hybridization studies in order to identify microorganisms, to measure DNA-DNA homologies, to group subspecies, etc. (musc.edu)
- Conventional techniques used for testing for the hybridization product include dot blot assays, Southern blot assays, and DNA:RNA hybrid-specific antibody tests. (musc.edu)
- In all five CLLs, the pattern of C mu DNA probe hybridization to the digested genomic DNAs was consistent with deletion of the C mu exon from the rearranged Ig gene locus, suggesting that these CLL B cells had undergone DNA switch recombination. (omicsdi.org)
- Also discussed are HLA gene-specific primers and HLA allele-specific or SNP-specific hybridization probes. (genomeweb.com)
- Fluorescence In Situ Hybridization an analytical technique: a fluorescent probe that detects DNA sequences in situ (in normal position within a chromosome) and thereby detects abnormalities. (mpninfo.org)
Sequences7
- The cross-linked sample DNA was hybridized with sequence-specific oligonucleotide probes to identify HLA-B27 allele sequences. (cdc.gov)
- Polymerase chain reaction sequence-specific oligonucleotide (PCR-SSO) typing combines the ability to define the finest of HLA specificities, by analysis of the corresponding DNA sequences, with the possibility of study large populations of normal and affected individuals. (ox.ac.uk)
- Alignment of parvovirus 4 (PARV4) sequences showing the location of the 2 probes used in the real-time experiments. (cdc.gov)
- A) Partial sequences used for the design of probe PARV4-N: PARV4 prototype isolate. (cdc.gov)
- Methods TCR sequences were detected using the Tempus xR assay, a hybrid-capture whole exome RNA assay optimized with probes for capture of TCR genes. (bmj.com)
- To localize and define additional polymorphic markers, we probed the collection of genomic clones with synthetic tandemly repeated dinucleotides, corresponding to the sequences known as microsatellites. (ox.ac.uk)
- Paul Berg (US) for his fundamental studies of the biochemistry of nucleic acids, with particular regard to recombinant-DNA and Walter Gilbert (US) and Frederick Sanger (GB) for their contributions concerning the determination of base sequences in nucleic acids shared the Nobel Prize in Chemistry. (deltastate.edu)
Polymorphism8
- Sequence polymorphism of HLA-DP beta chains. (uni-bielefeld.de)
- Our results suggest that the association between HLA polymorphism and risk of ICC might be influenced by the distribution of HPV-16 variants. (biomedcentral.com)
- DNA sequence polymorphism at the human tumor necrosis factor (TNF) locus. (ox.ac.uk)
- Therefore, we describe thus far the most informative level of DNA sequence polymorphism in this part of human MHC. (ox.ac.uk)
- Microsatellite tagged polymorphism described here can be used in systematic linkage studies of HLA-associated diseases. (ox.ac.uk)
- Identification of HLA-DP polymorphism with DP alpha and DP beta probes and monoclonal antibodies: correlation with primed lymphocyte typing. (ox.ac.uk)
- Using two DP beta probes and a DP alpha probe with a series of enzymes, it is possible to identify restriction fragment length polymorphism (RFLP) patterns characteristic of DPw1, -2, -3, -4, and possibly -5. (ox.ac.uk)
- Thus, using a range of probes and enzymes it is possible to identify DP polymorphism. (ox.ac.uk)
Genomic4
- Nucleic acids were extracted as described previously ( 7 ) and tested for PARV4 genomic DNA immediately after extraction to avoid freezing/thawing cycles. (cdc.gov)
- Genomic DNA was purified from the peripheral blood samples using the Maxwell RSC Blood DNA kit (Promega) as per the manufacturer's recommendations. (hindawi.com)
- In brief, the patient genomic DNA and gender-matched reference genomic DNA were labeled with cyanine 5 (Cy5) and cyanine 3 (Cy3), respectively. (hindawi.com)
- performed on genomic DNA, using a 50 nuclease PCR assay. (cdc.gov)
Genes7
- We characterized HPV-16 variants by PCR in 107 ICC cases, which were typed for HLA-DQA1 , DRB1 and DQB1 genes and compared to 257 controls. (biomedcentral.com)
- Neoantigens were identified from paired samples using the Tempus xT targeted DNA panel covering 648 cancer-associated genes. (bmj.com)
- HPV status was determined using a panel of probes to E6 and E7 genes in HPV16, 18 and 33 and captured by both the RNA and DNA assays. (bmj.com)
- TNF-alpha and lymphotoxin (LT, TNF-beta) genes are tandemly arranged and map within the MHC centromeric to HLA-B and telomeric to the class III genes. (ox.ac.uk)
- Analysis of your gene expression all over 21 solid cancer sizes found that the quantity of NLRC5 expression try highly coordinated with the phrase from MHC classification I and related genes, eg HLA-A great, HLA-B, HLA-C, B2M, LMP2, LMP7 and TAP1. (masazgorlice.pl)
- NLRC5 try an option regulator away from MHC classification I genes and you will death of NLRC5 term or craft results in less phrase off MHC classification I and relevant genes, along with HLA-A, -B, -C, B2M, LMP2, eight and you can TAP1, inside cancer structure. (masazgorlice.pl)
- Furthermore, the fresh new methylation level of NLRC5 is additionally adversely coordinated to your term from NLRC5-situated family genes on the MHC category I pathway, in addition to HLA-A, HLA-B, HLA-C, B2M, LMP2, LMP7 and you can TAP1. (masazgorlice.pl)
Allele-specific2
- Genotyping was performed using HiDi Taq DNA polymerase (myPOLS Biotec, #9201), which is a highly selective polymerase used for allele-specific PCRs (SNP detection). (mypols.de)
- Detection principle is based on real-time PCR method with allele specific primers and fluorescently labeled hydrolyzation probes. (ndd.gr)
Assay3
- FJ883557-61), and more particularly those detectable on agarose gels but showing negative signal with PARV4-O TaqMan assay because of mismatches identified on the probe recognition site ( Figure ). (cdc.gov)
- Rapid identification of up to three Candida species in a single reaction tube by a 5' exonuclease assay using fluorescent DNA probes. (musc.edu)
- By contrast, endpoint detection methods that utilize DNA arrays to detect PCR amplicons at the completion of an assay can detect a higher number of targets, but can generally provide only semiquantitative data about the concentration of the targets. (clpmag.com)
Antigen7
- HLA class II histocompatibility antigen, DP(W2) beta chain is a protein that in humans is encoded by the HLA-DPB1 gene. (wikipedia.org)
- An association between Human Leukocyte Histocompatibility Antigen B-27 (HLA-B27) and major arthritis syndromes such as Ankylosing Spondylitis and Reactive Arthritis is well documented (Khan et al. (cdc.gov)
- Human MHC class II lymphocyte antigen (HLA-DP) beta chain mRNA, complete cds. (uni-bielefeld.de)
- For researchers working in immunology and drug development, the human leukocyte antigen (HLA) system or complex is a critical element to keep in mind when planning experiments. (cytologicsbio.com)
- Low Resolution - an antigen-level result composing the first field of the HLA nomenclature. (cytologicsbio.com)
- and HLA typing and matching Human leukocyte antigen (HLA) typing is used to match patients and donors for allogeneic bone marrow transplants. (mpninfo.org)
- Long-term engraftment of allogeneic cells necessitates eluding immune-mediated rejection, which is currently achieved by matching for human leukocyte antigen (HLA) expression, immunosuppression, and/or delivery of donor-derived cells to sanctuary sites. (ashpublications.org)
Oligonucleotide1
- The oligonucleotide positive control dots were required to be positive for each probe and to be clearly distinguishable from all negative controls. (cdc.gov)
Locus3
- Exons 2 and 3 of the HLA-B locus were amplified with locus specific primers and the amplified DNA was arrayed onto seven replicate nylon membranes and immobilized by UV cross-linking. (cdc.gov)
- Application of single locus probes in cases of disputed paternity. (lfa-frankfurt.de)
- We mapped and characterized three (TC/GA) and one (AC/GT) repeats within cloned 40-kb DNA comprising the human TNF locus. (ox.ac.uk)
Genetic Markers1
- A child receives half of their genetic markers (DNA) from the biological mother and half from the biological father. (findlaw.com)
Polymerase6
- This polymerase is also available as a full-length Taq DNA polymerase with a nuclease domain, featuring 100% compatibility with hydrolysis probes (TaqMan® probes etc. (mypols.de)
- Several independently conducted studies show that HiDi® DNA polymerase is ideally suited for use in asPCR in numerous research areas ranging from mutation detection to genome editing. (mypols.de)
- HiDi® DNA polymerase is hotstart-formulated with an aptamer. (mypols.de)
- HiDi® DNA polymerase is supplied as a 5 U/µl solution containing glycerol and is supplied together with 10x reaction buffer which has been optimized for short amplicons between 50-200 bp of length. (mypols.de)
- HiDi® DNA polymerase can also be used for real-time cycling, when adding a suitable real-time dye, for example GreenDye ( #2000 ). (mypols.de)
- For hydrolysis probe based assays, please refer to our HiDi Taq DNA polymerase or our HiDi Taq 2x PCR master mix. (mypols.de)
TaqMan3
- Five microliters of the eluted material served for PARV4 DNA detection using real-time PCR TaqMan methods (StepOne Plus, Applied Biosystems, Courtaboeuf, France) and primers (ORF2) compatible with the detection of the 3 virus genogroups described at this time ( 2 , 4 , 7 ). (cdc.gov)
- Both TaqMan assays were estimated to detect as few as 10 copies of PARV4 DNA per reaction using dilutions of a synthetic template ( 7 ). (cdc.gov)
- The analysis is based on real-time PCR technology, using TaqMan® probes. (bioactiva.com)
Primers1
- A microarray containing the probes, and a kit containing the array and the HLA gene-specific primers, is also claimed. (genomeweb.com)
Molecules1
- Dyes are also provided that comprise reactive groups that may be used to attach the dyes to probes that will bind to desirable target molecules. (genomeweb.com)
Amplification5
- A consensus probe was used as a positive control for PCR amplification. (cdc.gov)
- A negative control was included in each amplification run as a quality control check for contamination of the reactions by specimens or amplified product DNA. (cdc.gov)
- An extensive review of DNA probe and biochip technologies, test formats, detection methodologies, trends in testing automation and amplification methods. (aarkstore.com)
- Several alternative gene amplification methods are now available to exploit the growing base of DNA sequence data. (clpmag.com)
- Multiplex ligation-dependent probe amplification (MLPA) screening for exon copy number variation in the calcium sensing receptor gene: no large rearrangements identified in patients with calcium metabolic disorders. (cdc.gov)
Detection3
- The kit is intended for detection of HLA-B27 allele in samples of human DNA. (ndd.gr)
- Regardless of application, the amplified products of PCR are generally detected using either "real-time" fluorescence methods or "endpoint" detection of amplicons on DNA arrays. (clpmag.com)
- Ideally, such automation should encompass all sample preparation steps, including DNA or RNA isolation, multiplexed PCR, and detection. (clpmag.com)
Vitro1
- The advantage of working with HLA-typed cells is that these samples provide an optimal in vitro control system to investigate immune-mediated disease and adverse drug reactions. (cytologicsbio.com)
Nomenclature2
- Nomenclature for factors of the HLA system, 1994. (uni-bielefeld.de)
- Although the HLA system is central to adaptive immunity and cell therapies, many scientists who do not specialize in the field find the nomenclature and typing techniques confusing. (cytologicsbio.com)
Donor5
- One of the main uses of HLA typing is for identifying the best recipient and donor match prior to hematopoietic stem cell transplantation. (cytologicsbio.com)
- Currently, the standard of care for HLA typing to select a donor for transplantation is to use a low or intermediate resolution method first, then type eligible candidates using a high-resolution method to confirm results and select the best matched donor. (cytologicsbio.com)
- If you need an allogeneic transplant (which uses cells from a family member, unrelated donor or cord blood unit), your doctor will take a blood sample to test for your HLA type. (mpninfo.org)
- Allogeneic-donor-derived cells can be genetically modified to eliminate expression of HLA-A. (ashpublications.org)
- HLA-A disruption from donor cells is a step toward generating allogeneic cells as an off-the-shelf therapeutic. (ashpublications.org)
Allelic1
- No allelic or HLA-B27 subtype analysis was performed and none is reported. (cdc.gov)
DPB11
- Nucleotide sequence of a new HLA-DPB1 allele, DPB1*02013. (uni-bielefeld.de)
Whole exome1
- We analyzed purified eosinophils from patients with IHES by next-generation whole-exome sequencing and compared DNA methylation profiles from reactive eosinophilic conditions to known clonal and suspected clonal eosinophilia. (oncotarget.com)
Methylation profiles1
Deoxyribonucleic acid1
- DNA (deoxyribonucleic acid) is the genetic material present in every cell of the human body. (findlaw.com)
Cancer1
- [1] For instance, patients with HLA-B*15:01 have been associated with specific cancer responses to checkpoint blockade immunotherapy. (cytologicsbio.com)
Class5
- HLA-DPB belongs to the HLA class II beta chain paralogues. (wikipedia.org)
- HLA class II polymorphisms are also associated with genetic susceptibility to ICC. (biomedcentral.com)
- Genetic complexity of regulatory mutant defective for HLA Class II gene expression. (lfa-frankfurt.de)
- A full HLA class II type may be obtained on a large number of samples simultaneously without the need to separate and store viable lymphocytes. (ox.ac.uk)
- Presence of strong association of the major histocompatibility complex (MHC) class I allele HLA-A*26:01 with idiopathic hypoparathyroidism. (cdc.gov)
Susceptibility2
- HLA information is used for a variety of purposes in preclinical research such as drug screening, determining disease susceptibility or inducing T cell stimulation in culture. (cytologicsbio.com)
- Background & aimsThere is great current interest in the potential application of DNA methylation alterations in peripheral blood leukocytes (PBLs) as biomarkers of susceptibility, progression, and treatment response in inflammatory bowel disease (IBD). (ox.ac.uk)
Tumor2
- In this study, we analyzed a large, real-world, clinicogenomic database of over 130k patients - with T-cell repertoire data covering a diverse landscape of HLA genotypes and tumor neoantigens - to identify public TCRs associated with HLA-specific neoantigens and viral epitopes. (bmj.com)
- These isotype-switched CLL B cells expressed surface HLA-DR, CD19, CD23, and CD5, and displayed no alterations of the bcl-1 and bcl-2 oncogenes and the p53 tumor-suppressor gene. (omicsdi.org)
Enzymatic1
- The patent also claims methods for the enzymatic preparation of 5'-activated, 3'-blocked DNA oligonucleotides from standard, single-stranded DNA oligonucleotides. (genomeweb.com)
Celiac1
- Celiac disease is associated with an extended HLA-DR3 haplotype which includes HLA-DPw1. (uni-bielefeld.de)
Samples6
- The B27_F_R data release provides data for the estimation of the U.S. national prevalence of HLA-B27 based on samples collected during the 2009 U.S. National Health and Nutrition Examination Survey (NHANES) survey year. (cdc.gov)
- All HLA-B27 positive specimens and 2.5% of HLA-B27 negative samples were confirmed using a second, independent DNA preparation in order to identify any sample discrepancies. (cdc.gov)
- However, traditional Sanger sequencing-based DNA barcoding protocols can be prohibitively expensive and laborious when large community samples have to be processed. (springer.com)
- Do I really need high resolution HLA typing on my research samples? (cytologicsbio.com)
- Samples with HLA typing provide more reliable models than animal cells, therefore transferability to clinical use is more assured. (cytologicsbio.com)
- It includes automated -80C bio repository for 7 million samples and liquid handling high-throughput equipment feeding the largest fleet of DNA sequencers in the African continent. (krisp.org.za)
Paternity3
- There are several ways to establish whether an alleged father is the natural and legal father of the minor child, such as the use of paternity blood tests and DNA paternity tests. (findlaw.com)
- DNA paternity testing is the most accurate form of paternity testing possible. (findlaw.com)
- If the DNA patterns between the mother, child, and the alleged father match on every DNA probe, the likelihood of paternity is 99.9 percent. (findlaw.com)
Individual's2
- Except for identical multiples (such as twins or triplets), each individual's DNA is unique. (findlaw.com)
- 2-5 Moreover, analysis of an individual's DNA can provide valuable information about their possible future health risks. (clpmag.com)
Amplicons1
- In the last two decades, DNA barcoding, the sequencing of short species-specific amplicons, has considerably simplified community analyses (Hebert et al. (springer.com)
Transcriptional1
- Although not, the new commonplace molecular apparatus to possess HLA loss seems to be transcriptional , but has been undefined for a long time. (masazgorlice.pl)
Specific1
- The use of DNA probes provides a specific, sensitive, rapid, and inexpensive replacement for cell culture techniques for diagnosing infections. (musc.edu)
Defective1
- We will explicitly use the term HIV reservoir as measuring HIV DNA will capture defective as well as infectious HIV particles [ 19 ]. (biomedcentral.com)
Methods2
- Please see the HLA-B27 component Laboratory Manual for more detailed documention of laboratory testing methods and quality control procedures. (cdc.gov)
- Let's take a look at the various HLA typing methods and determine which is the best fit for your research. (cytologicsbio.com)
Profiles1
- Below are the most recent publications written about "DNA Probes" by people in Profiles. (musc.edu)
Analysis3
- 2) Diagnostics using analysis of circulating DNA and circulating cells in diagnostics of the origin of trophoblastic neoplasias. (au.dk)
- We discuss amplicon-based DNA barcoding and metabarcoding for the analysis of community diversity and molecular gut content analysis for assessing predator-prey relationships. (springer.com)
- We then address the development of theoretical frameworks for community-level studies, and finally highlight critical gaps and future directions for DNA analysis of spider communities. (springer.com)
Proteins1
- HLA are proteins or markers found on most cells in your body. (mpninfo.org)
Blood donors2
Human2
- Human papillomavirus (HPV) is a DNA virus that infects the skin and mucosal membranes with more than 100 subtypes ( 8 ). (iranpath.org)
- Furthermore, we observed a correlation between the percentage of splenic human CD4+ T-cells with total HIV DNA, between the number of human CD38 + CD8+ T-cells in the spleen with the amount of integrated HIV DNA, and eventually between the hCD4/hCD8 ratio in the spleen with integrated as well as total HIV DNA implying that the CD8+ T cells influence the size of the HIV reservoir. (biomedcentral.com)
Infectious Diseases1
- As a regulator of the immune system, HLA can predict immune responses to various infectious diseases, autoimmune conditions and genetic disorders. (cytologicsbio.com)